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Series GSE165493 Query DataSets for GSE165493
Status Public on Jun 01, 2022
Title Effects of Minocycline and EE in CUMS as a MDD model: transcriptomic profiles and synaptic plasticity of microglia
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Two independent differential expression analyses were performed in mice subjected to chronic unpredictable mild stress (CUMS): one consisted of microglia (Cd11b+ cells) from the prefrontal cortex (PFC) and the other from the hippocampus (HC). After the CUMS protocol, minocycline, a wide spectrum antibiotic with anti-inflammatory properties, was delivered (CUMS_M group) in the drinking water/saccharine solution during 21 days. Transcriptomic profiling for a vehicle group (VEH), who spent 3 weeks in the cage with the same drinking solutions (Water/ saccharine 0.1%) and for a environmental enrichment (EE) group, that also spent 3 more weeks in the cage where enrichment materials were provided, were performed as well.
 
Overall design All bulk mRNA expression profiles were acquired from isolated PFC and HC areas. CD11b+ cells were sorted using the purity precision mode on FACS Aria. RNA was isolated following the protocol described in RNeasy kit manual and RNA concentration was immediately determined using a spectrophotometer (NanoDrop2000 ThermoScientific). Quality and integrity of total RNA was assessed with Agilent 2100 Bioanalyzer and strand-specific polyA enriched RNA libraries were prepared using the KAPA Stranded mRNA Sample Preparation Kit. Then, libraries were run in the rapid run flow cell -paired-end sequenced (2x76bp) - on HiSeq 1500. RNA sequencing analysis revealed several differentially expressed genes between groups in both PFC and HC.
 
Contributor(s) Banqueri M, Kiryk A, Roura AJ, Gielnielski B, Kaminska B
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Submission date Jan 25, 2021
Last update date Jun 01, 2022
Contact name Adria-Jaume Roura
E-mail(s) a.canalda@nencki.edu.pl
Organization name Nencki Institute of Experimental Biology, Polish Academy of Sciences
Street address Ludwika Pasteura 3
City Warsaw
ZIP/Postal code 02-093
Country Poland
 
Platforms (1)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (27)
GSM5034650 PFC CUMS rep1
GSM5034651 PFC CUMS rep2
GSM5034652 PFC CUMS_M rep1
Relations
BioProject PRJNA694684
SRA SRP303202

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE165493_EE_experiment_raw_counts_matrix.featureCounts.txt.gz 576.0 Kb (ftp)(http) TXT
GSE165493_MINO_experiment_raw_counts_matrix.featureCounts.txt.gz 579.3 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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